{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,10,26]],"date-time":"2025-10-26T14:16:23Z","timestamp":1761488183863},"reference-count":12,"publisher":"Oxford University Press (OUP)","issue":"5","license":[{"start":{"date-parts":[[2016,10,2]],"date-time":"2016-10-02T00:00:00Z","timestamp":1475366400000},"content-version":"vor","delay-in-days":2816,"URL":"http:\/\/creativecommons.org\/licenses\/by-nc\/2.0\/uk\/"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2009,3,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Summary: Studies on proteins are often restricted to highly simplified models to face the immense computational complexity of the associated problems. Constraint-based protein structure prediction (CPSP) tools is a package of very fast algorithms for ab initio optimal structure prediction and related problems in 3D HP-models [cubic and face centered cubic (FCC)]. Here, we present CPSP-web-tools, an interactive online interface of these programs for their immediate use. They include the first method for the direct prediction of optimal energies and structures in 3D HP side-chain models. This newest extension of the CPSP approach is described here for the first time.<\/jats:p>\n               <jats:p>Availability and Implementation: Free access at http:\/\/cpsp.informatik.uni-freiburg.de<\/jats:p>\n               <jats:p>Contact: \u00a0cpsp@informatik.uni-freiburg.de; cpsp@informatik.uni-freiburg.de<\/jats:p>","DOI":"10.1093\/bioinformatics\/btp034","type":"journal-article","created":{"date-parts":[[2009,1,17]],"date-time":"2009-01-17T01:50:48Z","timestamp":1232157048000},"page":"676-677","source":"Crossref","is-referenced-by-count":21,"title":["CPSP-web-tools: a server for 3D lattice protein studies"],"prefix":"10.1093","volume":"25","author":[{"given":"Martin","family":"Mann","sequence":"first","affiliation":[{"name":"1 Bioinformatics Group, University of Freiburg, Georges-K\u00f6hler-Allee 106, 79016 Freiburg, Germany and 2German University in Cairo, Department of Computer Science, 5th Settlement New Cairo City, Cairo, Egypt"}]},{"given":"Cameron","family":"Smith","sequence":"additional","affiliation":[{"name":"1 Bioinformatics Group, University of Freiburg, Georges-K\u00f6hler-Allee 106, 79016 Freiburg, Germany and 2German University in Cairo, Department of Computer Science, 5th Settlement New Cairo City, Cairo, Egypt"}]},{"given":"Mohamad","family":"Rabbath","sequence":"additional","affiliation":[{"name":"1 Bioinformatics Group, University of Freiburg, Georges-K\u00f6hler-Allee 106, 79016 Freiburg, Germany and 2German University in Cairo, Department of Computer Science, 5th Settlement New Cairo City, Cairo, Egypt"}]},{"given":"Marlien","family":"Edwards","sequence":"additional","affiliation":[{"name":"1 Bioinformatics Group, University of Freiburg, Georges-K\u00f6hler-Allee 106, 79016 Freiburg, Germany and 2German University in Cairo, Department of Computer Science, 5th Settlement New Cairo City, Cairo, Egypt"}]},{"given":"Sebastian","family":"Will","sequence":"additional","affiliation":[{"name":"1 Bioinformatics Group, University of Freiburg, Georges-K\u00f6hler-Allee 106, 79016 Freiburg, Germany and 2German University in Cairo, Department of Computer Science, 5th Settlement New Cairo City, Cairo, Egypt"}]},{"given":"Rolf","family":"Backofen","sequence":"additional","affiliation":[{"name":"1 Bioinformatics Group, University of Freiburg, Georges-K\u00f6hler-Allee 106, 79016 Freiburg, Germany and 2German University in Cairo, Department of Computer Science, 5th Settlement New Cairo City, Cairo, Egypt"}]}],"member":"286","published-online":{"date-parts":[[2009,1,16]]},"reference":[{"key":"2023013110105212200_B1","doi-asserted-by":"crossref","first-page":"5","DOI":"10.1007\/s10601-006-6848-8","article-title":"A constraint-based approach to fast and exact structure prediction in three-dimensional protein models","volume":"11","author":"Backofen","year":"2006","journal-title":"Constraints"},{"key":"2023013110105212200_B2","doi-asserted-by":"crossref","first-page":"27","DOI":"10.1089\/cmb.1998.5.27","article-title":"Protein folding in the hydrophobic-hydrophilic (HP) model is NP-complete","volume":"5","author":"Berger","year":"1998","journal-title":"J. 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Educ."},{"key":"2023013110105212200_B7","doi-asserted-by":"crossref","first-page":"e203","DOI":"10.1093\/bioinformatics\/btl248","article-title":"Modelling sequential protein folding under kinetic control","volume":"22","author":"Huard","year":"2006","journal-title":"Bioinformatics"},{"key":"2023013110105212200_B8","doi-asserted-by":"crossref","first-page":"i240","DOI":"10.1093\/bioinformatics\/btm180","article-title":"Different mechanistic requirements for prokaryotic and eukaryotic chaperonins: a lattice study","volume":"23","author":"Jacob","year":"2007","journal-title":"Bioinformatics"},{"key":"2023013110105212200_B9","doi-asserted-by":"crossref","first-page":"396","DOI":"10.2976\/1.3027681","article-title":"Classifying protein-like sequences in arbitrary lattice protein models using LatPack","volume":"2","author":"Mann","year":"2008","journal-title":"HFSP J."},{"key":"2023013110105212200_B10","doi-asserted-by":"crossref","first-page":"230","DOI":"10.1186\/1471-2105-9-230","article-title":"CPSP-tools \u2013 exact and complete algorithms for high-throughput 3D lattice protein studies","volume":"9","author":"Mann","year":"2008","journal-title":"BMC Bioinformatics"},{"key":"2023013110105212200_B11","doi-asserted-by":"crossref","first-page":"493","DOI":"10.1006\/jmbi.1995.0311","article-title":"The complexity and accuracy of discrete state models of protein structure","volume":"249","author":"Park","year":"1995","journal-title":"J. Mol. 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